X-Git-Url: http://woldlab.caltech.edu/gitweb/?p=samtools.git;a=blobdiff_plain;f=bam_stat.c;h=ea9deee9d712c71bfd51f7574a5cae055a2c2ace;hp=c1c4a432ce8167448f31577d2ce0f650610ff626;hb=d363084f0412f3bcdeb0304aeb0974c9a10c7649;hpb=b27e00385f41769d03a8cca4dbd71275fc9fa906

diff --git a/bam_stat.c b/bam_stat.c
index c1c4a43..ea9deee 100644
--- a/bam_stat.c
+++ b/bam_stat.c
@@ -16,7 +16,7 @@ typedef struct {
 			if ((c)->flag & BAM_FPROPER_PAIR) ++(s)->n_pair_good;		\
 			if ((c)->flag & BAM_FREAD1) ++(s)->n_read1;					\
 			if ((c)->flag & BAM_FREAD2) ++(s)->n_read2;					\
-			if ((c)->flag & BAM_FMUNMAP) ++(s)->n_sgltn;				\
+			if (((c)->flag & BAM_FMUNMAP) && !((c)->flag & BAM_FUNMAP)) ++(s)->n_sgltn;	\
 			if (!((c)->flag & BAM_FUNMAP) && !((c)->flag & BAM_FMUNMAP)) { \
 				++(s)->n_pair_map;										\
 				if ((c)->mtid != (c)->tid) {							\